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You should create new workspace for your own projects while putting official ros packages in the ros_catkin_ws. It's not necessary but it's better considering you will recompile your own packages a lot and you don't want to recompile the official ones as well with it. Then just source your newly created workspace.
If you would like to build some packages from source you can do it the same way as on regular ubuntu machine. Create workspace, initialize it, clone the package, build it and source it. If you follow the tutorial on source installation on rpi you should already have catkin build tools installed.
Again, if your package is in separated workspace just clean the workspace. It won't affect the ROS installation since it's in another workspace.
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